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Fixes runner tests #362

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Merged
wyli merged 4 commits into from
Sep 21, 2021
Merged

Fixes runner tests #362

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1be8025
fixes unet demo
wyli Sep 21, 2021
f5fd363
fixes install command
wyli Sep 21, 2021
6576575
fixes reg mednist
wyli Sep 21, 2021
e261a67
fixes install commands
wyli Sep 21, 2021
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14 changes: 10 additions & 4 deletions 2d_registration/registration_mednist.ipynb
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Original file line number Diff line number Diff line change
Expand Up @@ -34,15 +34,21 @@
{
"cell_type": "code",
"execution_count": null,
"metadata": {
"id": "4OTG9ShCUQtS"
},
"metadata": {},
"outputs": [],
"source": [
"!BUILD_MONAI=1 pip install git+https://github.com/Project-MONAI/MONAI#egg=monai[all]\n",
"%env BUILD_MONAI=1"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"!python -c \"import monai\" || pip install -q git+https://github.com/Project-MONAI/MONAI#egg=monai[all]"
]
},
{
"cell_type": "markdown",
"metadata": {
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4 changes: 2 additions & 2 deletions deployment/bentoml/mednist_classifier_bentoml.ipynb
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Expand Up @@ -22,7 +22,7 @@
"metadata": {},
"outputs": [],
"source": [
"!python -c \"import monai\" || pip install -q \"monai[pillow, tqdm]\"\n",
"!python -c \"import monai\" || pip install -q \"monai-weekly[pillow, tqdm]\"\n",
"!python -c \"import bentoml\" || pip install -q bentoml"
]
},
Expand Down Expand Up @@ -635,7 +635,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.10"
"version": "3.7.10"
}
},
"nbformat": 4,
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10 changes: 9 additions & 1 deletion modules/TorchIO_MONAI_PyTorch_Lightning.ipynb
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Expand Up @@ -51,6 +51,15 @@
"Training curves will be logged and visualized using TensorFlow's [TensorBoard](https://www.tensorflow.org/tensorboard). For quantitative results, we will use [Pandas](https://pandas.pydata.org/) and [Seaborn](https://seaborn.pydata.org/). Finally, we will perform a qualitative evaluation using TorchIO and [Matplotlib](https://matplotlib.org/stable/index.html)."
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"!python -c \"import monai\" || pip install -q \"monai-weekly\""
]
},
{
"cell_type": "code",
"execution_count": null,
Expand All @@ -61,7 +70,6 @@
"source": [
"%%bash\n",
"pip install -q torchio==0.18.39\n",
"pip install -q monai==0.6.0\n",
"pip install -q pytorch-lightning==1.2.10\n",
"pip install -q pandas==1.1.5 seaborn==0.11.1"
]
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